Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 162 of 187
Found at i:49102798 original size:93 final size:93
Alignment explanation
Indices: 49102639--49102827 Score: 299
Period size: 93 Copynumber: 2.0 Consensus size: 93
49102629 CTAAATATAA
* *
49102639 AAATACCATATGGACACGTGAAAGTTGTCTTCTCTTGATATTTAAGTGCTATGGAAATTTGATTA
1 AAATACCATATGGACACGTGAAAGTTGTCTTCTCTTGATATTCAAGTGCTATAGAAATTTGATTA
* * *
49102704 TATCTTGAATAACCATCTAGGAAGCAAT
66 TATCCTAAATAACCATCTAGGAAGAAAT
*
49102732 AAATACCATATGGACACGTGAAAGTTGT-TCTCTCTTGATCTTCAAGTGCTATAGAAATTTGATT
1 AAATACCATATGGACACGTGAAAGTTGTCT-TCTCTTGATATTCAAGTGCTATAGAAATTTGATT
*
49102796 ATATCCTAAATAAGCATCTAGGAAGAAAT
65 ATATCCTAAATAACCATCTAGGAAGAAAT
49102825 AAA
1 AAA
49102828 ATGCCTTACC
Statistics
Matches: 88, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
92 1 0.01
93 87 0.99
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (93 bp):
AAATACCATATGGACACGTGAAAGTTGTCTTCTCTTGATATTCAAGTGCTATAGAAATTTGATTA
TATCCTAAATAACCATCTAGGAAGAAAT
Found at i:49110626 original size:15 final size:15
Alignment explanation
Indices: 49110606--49110634 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
49110596 TTTTATTGAT
49110606 TCTTGAAGGATATGA
1 TCTTGAAGGATATGA
49110621 TCTTGAAGGATATG
1 TCTTGAAGGATATG
49110635 TGTTACGCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.07, G:0.28, T:0.34
Consensus pattern (15 bp):
TCTTGAAGGATATGA
Found at i:49116912 original size:20 final size:20
Alignment explanation
Indices: 49116887--49116944 Score: 91
Period size: 20 Copynumber: 2.9 Consensus size: 20
49116877 ACCCACTTTA
49116887 TTAACATAAAAATTTAAAAT
1 TTAACATAAAAATTTAAAAT
*
49116907 TTAACATAAAAAGTTAAAAT
1 TTAACATAAAAATTTAAAAT
49116927 TTAACA-AAATAATTTAAA
1 TTAACATAAA-AATTTAAA
49116945 CTAGAAAAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 32 0.91
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (20 bp):
TTAACATAAAAATTTAAAAT
Found at i:49120554 original size:50 final size:50
Alignment explanation
Indices: 49120441--49120738 Score: 265
Period size: 50 Copynumber: 5.9 Consensus size: 50
49120431 CATTTGGGTA
* * * *
49120441 AAGAGATCCCATGTAAGACAATATCTGGGACATGGCATTGGCATCCTTGAAAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA--C-TGAGAT
*
49120494 CATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGAC
1 -A--AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGAT
* *
49120547 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGAT
* ** * * ** * *
49120597 GAGAGGTCCCCCGTAAGACAATGTCTAGGACATGGCACGGGCACCGATAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGAT
* ** * * * * * * *
49120647 GAGAACTCCCATGTAAGACCATATTTGGGATATGACATTGGTAGT-ACAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGAT
* ** *
49120696 AAAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
49120739 TGTTATTATC
Statistics
Matches: 199, Mismatches: 43, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
49 36 0.18
50 117 0.59
52 1 0.01
53 4 0.02
54 2 0.01
56 39 0.20
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGAT
Found at i:49126626 original size:15 final size:16
Alignment explanation
Indices: 49126601--49126647 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
49126591 CTAAGATATT
49126601 TGAGA-GAGAGGATGA
1 TGAGATGAGAGGATGA
49126616 -GAGATGAGAGGGATGA
1 TGAGATGAGA-GGATGA
*
49126632 TGAGATCAG-GGATGA
1 TGAGATGAGAGGATGA
49126647 T
1 T
49126648 TAAAAAAGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
14 4 0.14
15 11 0.39
16 6 0.21
17 7 0.25
ACGTcount: A:0.36, C:0.02, G:0.45, T:0.17
Consensus pattern (16 bp):
TGAGATGAGAGGATGA
Found at i:49132208 original size:27 final size:26
Alignment explanation
Indices: 49132162--49132216 Score: 60
Period size: 26 Copynumber: 2.1 Consensus size: 26
49132152 TAAAGAAATT
*
49132162 TTCAAAATTTGAAAATAATTTTTAAAA
1 TTCAAAATTTGAAAATAA-TTCTAAAA
49132189 TTCAAATATTT-ATAAA-AATTCTAAAA
1 TTCAAA-ATTTGA-AAATAATTCTAAAA
49132215 TT
1 TT
49132217 TGTATTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
26 9 0.36
27 9 0.36
28 7 0.28
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (26 bp):
TTCAAAATTTGAAAATAATTCTAAAA
Found at i:49132287 original size:19 final size:18
Alignment explanation
Indices: 49132223--49132287 Score: 51
Period size: 19 Copynumber: 3.6 Consensus size: 18
49132213 AATTTGTATT
49132223 TTTAAAAAAATAT-AAAA
1 TTTAAAAAAATATAAAAA
* *
49132240 TCTAAAAAAATCTAAAAAA
1 TTTAAAAAAATAT-AAAAA
* * *
49132259 TATATCAAAAATTTAAAAA
1 TTTA-AAAAAATATAAAAA
*
49132278 TTTAATAAAA
1 TTTAAAAAAA
49132288 CAATAATTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
17 11 0.30
18 4 0.11
19 15 0.41
20 7 0.19
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (18 bp):
TTTAAAAAAATATAAAAA
Found at i:49134607 original size:21 final size:21
Alignment explanation
Indices: 49134583--49134643 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 21
49134573 TTTTATAAAA
49134583 AATTCAATTTAACTAATAGTC
1 AATTCAATTTAACTAATAGTC
* * *
49134604 AATTCAATTCAATTAATA-TT
1 AATTCAATTTAACTAATAGTC
***
49134624 AATTTGTTTTAACTAATAGT
1 AATTCAATTTAACTAATAGT
49134644 TGATTAACCA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
20 14 0.45
21 17 0.55
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (21 bp):
AATTCAATTTAACTAATAGTC
Found at i:49135429 original size:21 final size:22
Alignment explanation
Indices: 49135404--49135450 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
49135394 TTTTATATTT
* *
49135404 AAAATTTTTTAAAAAA-TCATA
1 AAAATTTATAAAAAAAGTCATA
49135425 AAAA-TTATAAAAAAAGTCATA
1 AAAATTTATAAAAAAAGTCATA
49135446 AAAAT
1 AAAAT
49135451 AATAAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (22 bp):
AAAATTTATAAAAAAAGTCATA
Found at i:49135455 original size:21 final size:20
Alignment explanation
Indices: 49135414--49135457 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
49135404 AAAATTTTTT
*
49135414 AAAAAATCATAAAAATTATA
1 AAAAAATCATAAAAATAATA
49135434 AAAAAAGTCATAAAAATAATA
1 AAAAAA-TCATAAAAATAATA
49135455 AAA
1 AAA
49135458 TTATTAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.20
Consensus pattern (20 bp):
AAAAAATCATAAAAATAATA
Found at i:49135502 original size:15 final size:17
Alignment explanation
Indices: 49135484--49135521 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
49135474 TTATAAAACA
*
49135484 ATAAAGTACA-AAAA-T
1 ATAAAATACAGAAAATT
49135499 ATAAAATACAGAAAATT
1 ATAAAATACAGAAAATT
49135516 ATAAAA
1 ATAAAA
49135522 ATATATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 9 0.45
16 4 0.20
17 7 0.35
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.21
Consensus pattern (17 bp):
ATAAAATACAGAAAATT
Found at i:49135518 original size:17 final size:15
Alignment explanation
Indices: 49135484--49135537 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 15
49135474 TTATAAAACA
*
49135484 ATAAAGTACAAAAAT
1 ATAAAATACAAAAAT
49135499 ATAAAATACAGAAAATT
1 ATAAAATACA-AAAA-T
*
49135516 ATAAAAATATATAAAAT
1 AT-AAAATACA-AAAAT
49135533 ATAAA
1 ATAAA
49135538 GAAATTGCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
15 9 0.27
16 7 0.21
17 6 0.18
18 11 0.33
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.24
Consensus pattern (15 bp):
ATAAAATACAAAAAT
Found at i:49135689 original size:21 final size:21
Alignment explanation
Indices: 49135665--49135704 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
49135655 GAAAAGTTCA
* *
49135665 AGAAATTTTAAAAAAAAATAT
1 AGAAAATTGAAAAAAAAATAT
49135686 AGAAAATTGAAAAAAAAAT
1 AGAAAATTGAAAAAAAAAT
49135705 CATTACAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (21 bp):
AGAAAATTGAAAAAAAAATAT
Found at i:49137169 original size:17 final size:17
Alignment explanation
Indices: 49137144--49137187 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
49137134 GATAATATTT
* *
49137144 GATTTTGTAATCCGGGA
1 GATTATGTAATCCAGGA
*
49137161 GATTATGTAATCTAGGA
1 GATTATGTAATCCAGGA
49137178 GATTATGTAA
1 GATTATGTAA
49137188 ACCCATTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.36
Consensus pattern (17 bp):
GATTATGTAATCCAGGA
Found at i:49140020 original size:121 final size:121
Alignment explanation
Indices: 49139872--49140153 Score: 555
Period size: 121 Copynumber: 2.3 Consensus size: 121
49139862 TTAAAAAGAA
*
49139872 TTAATAAGACATGTTAACCCTTACCAATTTGATTTTATTTGTGTATTTAGTCAAATTAATACATA
1 TTAACAAGACATGTTAACCCTTACCAATTTGATTTTATTTGTGTATTTAGTCAAATTAATACATA
49139937 TCGTTCAAATTAATCTCAACAACTATTATGATAGCACAATTAGACTAAATGCTTCC
66 TCGTTCAAATTAATCTCAACAACTATTATGATAGCACAATTAGACTAAATGCTTCC
49139993 TTAACAAGACATGTTAACCCTTACCAATTTGATTTTATTTGTGTATTTAGTCAAATTAATACATA
1 TTAACAAGACATGTTAACCCTTACCAATTTGATTTTATTTGTGTATTTAGTCAAATTAATACATA
49140058 TCGTTCAAATTAATCTCAACAACTATTATGATAGCACAATTAGACTAAATGCTTCC
66 TCGTTCAAATTAATCTCAACAACTATTATGATAGCACAATTAGACTAAATGCTTCC
49140114 TTAACAAGACATGTTAACCCTTACCAATTTGATTTTATTT
1 TTAACAAGACATGTTAACCCTTACCAATTTGATTTTATTT
49140154 CCTTATTCAA
Statistics
Matches: 160, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
121 160 1.00
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.38
Consensus pattern (121 bp):
TTAACAAGACATGTTAACCCTTACCAATTTGATTTTATTTGTGTATTTAGTCAAATTAATACATA
TCGTTCAAATTAATCTCAACAACTATTATGATAGCACAATTAGACTAAATGCTTCC
Found at i:49143171 original size:77 final size:77
Alignment explanation
Indices: 49143080--49143233 Score: 272
Period size: 77 Copynumber: 2.0 Consensus size: 77
49143070 ATGCAATAAT
*
49143080 CCTTAAGTCCTTTATCTCTGGATTGGACACAAGTCATGAAATAGTCACACTTGCATAGTCCATTC
1 CCTTAAGTCCTTTATCTCTAGATTGGACACAAGTCATGAAATAGTCACACTTGCATAGTCCATTC
*
49143145 CATGTTCTTTGA
66 CATGTTCCTTGA
* *
49143157 CCTTAAGTCCTTTATCTCTAGATTGGACACAAGTCATGGAATAGTCACACTTGTATAGTCCATTC
1 CCTTAAGTCCTTTATCTCTAGATTGGACACAAGTCATGAAATAGTCACACTTGCATAGTCCATTC
49143222 CATGTTCCTTGA
66 CATGTTCCTTGA
49143234 TATGTTAAGC
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
77 73 1.00
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (77 bp):
CCTTAAGTCCTTTATCTCTAGATTGGACACAAGTCATGAAATAGTCACACTTGCATAGTCCATTC
CATGTTCCTTGA
Found at i:49143655 original size:130 final size:130
Alignment explanation
Indices: 49143420--49143678 Score: 446
Period size: 130 Copynumber: 2.0 Consensus size: 130
49143410 TCCAACATCA
*
49143420 GCCTTTATAGAACAACCAGTTATGGTGTACGTTTGACTATATCAAAATATACAACTCACGATGTT
1 GCCTTTATAGAACAACCAGTTACGGTGTACGTTTGACTATATCAAAATATACAACTCACGATGTT
* * *
49143485 GGGATTATGATGATCTCAGGTCTGAGGATCATATAAATATTAATCACTATGAGTAATGTTGTGAC
66 GGGATTATGATGATCTCAAGTCTGAGGATCATATAAATATTAATCACTATAAGTAATGTCGTGAC
*
49143550 GCCTTTATAGAACAACCAGTTACGGTGTACGTTTGACTGTATCAAAATATACAACTCACGATGTT
1 GCCTTTATAGAACAACCAGTTACGGTGTACGTTTGACTATATCAAAATATACAACTCACGATGTT
* * *
49143615 GGGATTATGATGATCTCAAGTTTGAGGATTATATACATATTAATCACTATAAGTAATGTCGTGA
66 GGGATTATGATGATCTCAAGTCTGAGGATCATATAAATATTAATCACTATAAGTAATGTCGTGA
49143679 TAATTACATA
Statistics
Matches: 121, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
130 121 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (130 bp):
GCCTTTATAGAACAACCAGTTACGGTGTACGTTTGACTATATCAAAATATACAACTCACGATGTT
GGGATTATGATGATCTCAAGTCTGAGGATCATATAAATATTAATCACTATAAGTAATGTCGTGAC
Found at i:49147694 original size:62 final size:59
Alignment explanation
Indices: 49147590--49147706 Score: 171
Period size: 62 Copynumber: 1.9 Consensus size: 59
49147580 ATCACTTTAA
* * *
49147590 TATTAAATTAATATAATATTTATTAAGATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAAATAATAGAATATTTATTAAGATAAATATTAAATTAAATTTAATATTAAATCT
*
49147649 TATTAAAATAATAGAATGTTTATCTTCAAGATAAATATTAAATTAAATTTAATATTAA
1 TATTAAAATAATAGAATATTTA--TT-AAGATAAATATTAAATTAAATTTAATATTAA
49147707 GATAATCACT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 19 0.37
61 2 0.04
62 30 0.59
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.44
Consensus pattern (59 bp):
TATTAAAATAATAGAATATTTATTAAGATAAATATTAAATTAAATTTAATATTAAATCT
Found at i:49149539 original size:19 final size:19
Alignment explanation
Indices: 49149504--49149590 Score: 86
Period size: 19 Copynumber: 4.6 Consensus size: 19
49149494 GCACTGGTGA
*
49149504 ACGAAGCGCA-TCTTGGCAC
1 ACGAAGTGCATTC-TGGCAC
* *
49149523 ACGTAGTGCATTCTGGCGC
1 ACGAAGTGCATTCTGGCAC
**
49149542 ACGAAGTGCATTCTGGTGC
1 ACGAAGTGCATTCTGGCAC
* *
49149561 ACGAAGTGCATCCTAGCAC
1 ACGAAGTGCATTCTGGCAC
*
49149580 AGGAAGTGCAT
1 ACGAAGTGCAT
49149591 CCTAACACAC
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
19 55 0.96
20 2 0.04
ACGTcount: A:0.25, C:0.25, G:0.29, T:0.21
Consensus pattern (19 bp):
ACGAAGTGCATTCTGGCAC
Found at i:49149591 original size:19 final size:19
Alignment explanation
Indices: 49149563--49149599 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
49149553 TCTGGTGCAC
*
49149563 GAAGTGCATCCTAGCACAG
1 GAAGTGCATCCTAACACAG
49149582 GAAGTGCATCCTAACACA
1 GAAGTGCATCCTAACACA
49149600 CAAATTGCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.27, G:0.22, T:0.16
Consensus pattern (19 bp):
GAAGTGCATCCTAACACAG
Found at i:49149608 original size:19 final size:19
Alignment explanation
Indices: 49149564--49149609 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
49149554 CTGGTGCACG
* **
49149564 AAGTGCATCCTAGCACAGG
1 AAGTGCATCCTAACACACA
49149583 AAGTGCATCCTAACACACA
1 AAGTGCATCCTAACACACA
*
49149602 AATTGCAT
1 AAGTGCAT
49149610 AAACCTGCAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.20
Consensus pattern (19 bp):
AAGTGCATCCTAACACACA
Found at i:49152267 original size:6 final size:6
Alignment explanation
Indices: 49152256--49152293 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
49152246 CCACCATCTT
49152256 CTAATG CTAATG CTAATG CTAATG CTAATG CTAATG CT
1 CTAATG CTAATG CTAATG CTAATG CTAATG CTAATG CT
49152294 CCTGCTCCTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (6 bp):
CTAATG
Found at i:49153131 original size:27 final size:27
Alignment explanation
Indices: 49153101--49153156 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
49153091 TTTAGAGATT
*
49153101 TATTTGCATCCTTTGTAAAACTTATGC
1 TATTTGCATCCTTTGTAAAAATTATGC
49153128 TATTTGCATCCTTTGTAAAAATTATGC
1 TATTTGCATCCTTTGTAAAAATTATGC
49153155 TA
1 TA
49153157 AAAAATTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.16, G:0.11, T:0.45
Consensus pattern (27 bp):
TATTTGCATCCTTTGTAAAAATTATGC
Found at i:49155496 original size:17 final size:18
Alignment explanation
Indices: 49155474--49155520 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
49155464 GTAGGCGAGT
*
49155474 CCCCTTGCATGTA-AACC
1 CCCCTTGCATGTACAAAC
*
49155491 CCCCTTTCATGTACAAAC
1 CCCCTTGCATGTACAAAC
*
49155509 CCCTTTGCATGT
1 CCCCTTGCATGT
49155521 GCAAGCCCCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.21, C:0.38, G:0.11, T:0.30
Consensus pattern (18 bp):
CCCCTTGCATGTACAAAC
Found at i:49155519 original size:18 final size:18
Alignment explanation
Indices: 49155474--49155531 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
49155464 GTAGGCGAGT
*
49155474 CCCC-TTGCATGTA-AACC
1 CCCCTTTGCATGTACAA-A
49155491 CCCCTTT-CATGTACAAA
1 CCCCTTTGCATGTACAAA
* *
49155508 CCCCTTTGCATGTGCAAG
1 CCCCTTTGCATGTACAAA
49155526 CCCCTT
1 CCCCTT
49155532 ATGCGAACCC
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
17 17 0.49
18 18 0.51
ACGTcount: A:0.21, C:0.40, G:0.12, T:0.28
Consensus pattern (18 bp):
CCCCTTTGCATGTACAAA
Found at i:49157557 original size:17 final size:17
Alignment explanation
Indices: 49157523--49157556 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
49157513 TTTTTAATTG
*
49157523 TGTAATTTTGTCTATTT
1 TGTAATTTAGTCTATTT
49157540 TGTAATTTAGTCT-TTT
1 TGTAATTTAGTCTATTT
49157556 T
1 T
49157557 TAGTGTTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.18, C:0.06, G:0.12, T:0.65
Consensus pattern (17 bp):
TGTAATTTAGTCTATTT
Found at i:49158572 original size:49 final size:48
Alignment explanation
Indices: 49158495--49158626 Score: 176
Period size: 49 Copynumber: 2.7 Consensus size: 48
49158485 ATTTATAGGA
*
49158495 TGAAAAACCTTATTCTAATCAATGTCAAATAAAAAGAGTGTAGCAAGGT
1 TGAAAAACCTTATTCTAATCAATATCAAATAAAAA-AGTGTAGCAAGGT
** *
49158544 T-AAAACACCTTATTCTAATCAATATCAAATAGATTAAGTGTAGTAAGGT
1 TGAAAA-ACCTTATTCTAATCAATATCAAATA-AAAAAGTGTAGCAAGGT
* *
49158593 TGAAAAACCTTATTCTAATCAAAATAAAATAAAA
1 TGAAAAACCTTATTCTAATCAATATCAAATAAAA
49158627 GTGTAGTTCT
Statistics
Matches: 72, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
48 5 0.07
49 61 0.85
50 6 0.08
ACGTcount: A:0.48, C:0.12, G:0.11, T:0.29
Consensus pattern (48 bp):
TGAAAAACCTTATTCTAATCAATATCAAATAAAAAAGTGTAGCAAGGT
Found at i:49163073 original size:49 final size:50
Alignment explanation
Indices: 49162997--49163234 Score: 324
Period size: 49 Copynumber: 4.9 Consensus size: 50
49162987 TTATAGTTTG
*
49162997 AAAAACCTTATTCTAATCAATGTAAAATAGAATG-AGTGTAGTAAGGTTC
1 AAAAACCTTATTCTAATCAATATAAAATAGAATGAAGTGTAGTAAGGTTC
* * * * *
49163046 CAACACCTTATTTTAATCAATATAAAATAG-ATGAAGTGTAGTAGGGTTG
1 AAAAACCTTATTCTAATCAATATAAAATAGAATGAAGTGTAGTAAGGTTC
*
49163095 AAAAACCTTATTCTAATCAATGTAAAATAGAATG-AGTGTAGTAAGGTTC
1 AAAAACCTTATTCTAATCAATATAAAATAGAATGAAGTGTAGTAAGGTTC
* * * *
49163144 CAACACCTTATTTTAATCAATATAAAATAG-ATGAAGTGTAGTAAGGTTG
1 AAAAACCTTATTCTAATCAATATAAAATAGAATGAAGTGTAGTAAGGTTC
* *
49163193 AAAAACCTTATTCTAATCAAAATAAAATA-AAAGAAGTGTAGT
1 AAAAACCTTATTCTAATCAATATAAAATAGAATGAAGTGTAGT
49163235 TCTATATGGA
Statistics
Matches: 163, Mismatches: 22, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
48 6 0.04
49 154 0.94
50 3 0.02
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.31
Consensus pattern (50 bp):
AAAAACCTTATTCTAATCAATATAAAATAGAATGAAGTGTAGTAAGGTTC
Found at i:49163163 original size:98 final size:98
Alignment explanation
Indices: 49162994--49163234 Score: 430
Period size: 98 Copynumber: 2.5 Consensus size: 98
49162984 TATTTATAGT
49162994 TTGAAAAACCTTATTCTAATCAATGTAAAATAGAATGAGTGTAGTAAGGTTCCAACACCTTATTT
1 TTGAAAAACCTTATTCTAATCAATGTAAAATAGAATGAGTGTAGTAAGGTTCCAACACCTTATTT
*
49163059 TAATCAATATAAAATAGATGAAGTGTAGTAGGG
66 TAATCAATATAAAATAGATGAAGTGTAGTAAGG
49163092 TTGAAAAACCTTATTCTAATCAATGTAAAATAGAATGAGTGTAGTAAGGTTCCAACACCTTATTT
1 TTGAAAAACCTTATTCTAATCAATGTAAAATAGAATGAGTGTAGTAAGGTTCCAACACCTTATTT
49163157 TAATCAATATAAAATAGATGAAGTGTAGTAAGG
66 TAATCAATATAAAATAGATGAAGTGTAGTAAGG
** *
49163190 TTGAAAAACCTTATTCTAATCAAAATAAAATA-AAAGAAGTGTAGT
1 TTGAAAAACCTTATTCTAATCAATGTAAAATAGAATG-AGTGTAGT
49163235 TCTATATGGA
Statistics
Matches: 138, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
97 3 0.02
98 135 0.98
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.31
Consensus pattern (98 bp):
TTGAAAAACCTTATTCTAATCAATGTAAAATAGAATGAGTGTAGTAAGGTTCCAACACCTTATTT
TAATCAATATAAAATAGATGAAGTGTAGTAAGG
Found at i:49166378 original size:85 final size:85
Alignment explanation
Indices: 49166235--49166411 Score: 309
Period size: 85 Copynumber: 2.1 Consensus size: 85
49166225 TACGAACGTG
* *
49166235 CATAAGACAACCCTTGGAATCTATTGAACAATAAGAAGCATGACGATCGAATATTGAATTTATAC
1 CATAAGACAACCCTTGGAATCTATTGAACAATAAGAAGCACGACAATCGAATATTGAATTTATAC
*
49166300 AAGACCTATCTCACATGCAA
66 AAGACCTATCCCACATGCAA
* *
49166320 CATAAGACAACCCTTGGAATCTGTTGAACAATAAGAAGCACGATAATCGAATATTGAATTTATAC
1 CATAAGACAACCCTTGGAATCTATTGAACAATAAGAAGCACGACAATCGAATATTGAATTTATAC
49166385 AAGACCTATCCCACATGCAA
66 AAGACCTATCCCACATGCAA
49166405 CATAAGA
1 CATAAGA
49166412 TTGGTGTTTA
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 87 1.00
ACGTcount: A:0.42, C:0.20, G:0.14, T:0.24
Consensus pattern (85 bp):
CATAAGACAACCCTTGGAATCTATTGAACAATAAGAAGCACGACAATCGAATATTGAATTTATAC
AAGACCTATCCCACATGCAA
Found at i:49173194 original size:102 final size:102
Alignment explanation
Indices: 49173069--49173296 Score: 350
Period size: 102 Copynumber: 2.2 Consensus size: 102
49173059 GAATATAAAG
* * *
49173069 GGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGTTGATTCCCTGACTCATTGGTGGT
1 GGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGT
* * *
49173134 TGCTAAGTGTTGATTCCACCATATCTTAAATGTG-AA
66 TGCTAAGTGCTGATCCCACCATATATTAAATGTGAAA
*
49173170 GGGGCTTGCTAAGTGCTGATTCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGG
1 GGGG-TTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGG
**
49173235 TTGCTAAGTGCTGATCCCACTGTATATTAAATGTGAAA
65 TTGCTAAGTGCTGATCCCACCATATATTAAATGTGAAA
*
49173273 GGGGTTGCTAAGTGTTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
49173297 GACTCATTGG
Statistics
Matches: 115, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
101 4 0.03
102 105 0.91
103 6 0.05
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.32
Consensus pattern (102 bp):
GGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGT
TGCTAAGTGCTGATCCCACCATATATTAAATGTGAAA
Found at i:49173208 original size:27 final size:28
Alignment explanation
Indices: 49173169--49173221 Score: 99
Period size: 27 Copynumber: 1.9 Consensus size: 28
49173159 TTAAATGTGA
49173169 AGGGGCTTGCTAAGTGCTGATTCCCCCG
1 AGGGGCTTGCTAAGTGCTGATTCCCCCG
49173197 AGGGG-TTGCTAAGTGCTGATTCCCC
1 AGGGGCTTGCTAAGTGCTGATTCCCC
49173222 GAATCATTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 20 0.80
28 5 0.20
ACGTcount: A:0.15, C:0.26, G:0.32, T:0.26
Consensus pattern (28 bp):
AGGGGCTTGCTAAGTGCTGATTCCCCCG
Found at i:49173242 original size:33 final size:33
Alignment explanation
Indices: 49173200--49173332 Score: 115
Period size: 33 Copynumber: 3.7 Consensus size: 33
49173190 TCCCCCGAGG
49173200 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* *
49173233 GGTTGCTAAGTGCTGA-TCCCACTGTATATTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCC-C-G-A-A-T-CAT-TG---GT
* *
49173275 GGTTGCTAAGTGTTGATTCCCCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
*
49173308 GGTTGCTAAGTGCTGAATCCACCGA
1 GGTTGCTAAGTGCTGATTCC-CCGA
49173333 TAACGGATAA
Statistics
Matches: 80, Mismatches: 8, Indels: 23
0.72 0.07 0.21
Matches are distributed among these distances:
32 4 0.05
33 36 0.45
34 5 0.06
35 1 0.01
36 3 0.04
37 3 0.04
38 3 0.04
39 2 0.03
40 1 0.01
41 1 0.01
42 17 0.21
43 4 0.05
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.32
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
Found at i:49180618 original size:33 final size:33
Alignment explanation
Indices: 49180576--49180730 Score: 124
Period size: 33 Copynumber: 4.6 Consensus size: 33
49180566 ATATAAAGGG
*
49180576 GGTTGCTAAGTGTTGATTCCCCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
* * * *
49180609 GGTTGCTAAGTACTGATTCCACCATATCTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCC-CC-GA-C-T-CAT-T---GGT
*
49180651 GGTTGCTAAGTGCTGATTCCCC--C-GA--GG-
1 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
*
49180678 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
49180711 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
49180731 ACCGTATCTT
Statistics
Matches: 98, Mismatches: 9, Indels: 30
0.72 0.07 0.22
Matches are distributed among these distances:
27 22 0.22
28 2 0.02
30 1 0.01
32 2 0.02
33 38 0.39
34 3 0.03
35 1 0.01
36 1 0.01
37 2 0.02
38 2 0.02
39 1 0.01
41 2 0.02
42 21 0.21
ACGTcount: A:0.19, C:0.21, G:0.28, T:0.32
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
Found at i:49180755 original size:102 final size:102
Alignment explanation
Indices: 49180574--49180777 Score: 336
Period size: 102 Copynumber: 2.0 Consensus size: 102
49180564 GAATATAAAG
* *
49180574 GGGGTTGCTAAGTGTTGATTCCCCGACTCATTGGTGGTTGCTAAGTACTGATTCCACCATATCTT
1 GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTACTGATTCCACCATATCTT
* * * *
49180639 AAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCGA
66 AAATGTGAAAGGGGTTGCTAAATGCTGAATCCACCGA
* *
49180676 GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTT
1 GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTACTGATTCCACCATATCTT
49180741 AAATGTGAAAGGGGTTGCTAAATGCTGAATCCACCGA
66 AAATGTGAAAGGGGTTGCTAAATGCTGAATCCACCGA
49180778 TAACGGATAA
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
102 94 1.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (102 bp):
GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTACTGATTCCACCATATCTT
AAATGTGAAAGGGGTTGCTAAATGCTGAATCCACCGA
Found at i:49182963 original size:12 final size:12
Alignment explanation
Indices: 49182945--49182974 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
49182935 TATCGCAAAG
49182945 AAAATAGAAATA
1 AAAATAGAAATA
*
49182957 GAAATAGAAATA
1 AAAATAGAAATA
49182969 AAAATA
1 AAAATA
49182975 AAGAACACAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (12 bp):
AAAATAGAAATA
Found at i:49196771 original size:44 final size:44
Alignment explanation
Indices: 49196707--49196797 Score: 130
Period size: 44 Copynumber: 2.1 Consensus size: 44
49196697 GTAGGTCAAA
* *
49196707 TAATATTATAATAATCTACACTAATCAGAGTTTAAGTGGGAAAC
1 TAATATTAAAATAATCTACACTAATCAGAGTTTAAATGGGAAAC
* *
49196751 TAATATTAAAATAA-CATACACTAATTAGAGTTTAAATGGTAAAC
1 TAATATTAAAATAATC-TACACTAATCAGAGTTTAAATGGGAAAC
49196795 TAA
1 TAA
49196798 AAACAGAGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 1 0.02
44 41 0.98
ACGTcount: A:0.47, C:0.10, G:0.11, T:0.32
Consensus pattern (44 bp):
TAATATTAAAATAATCTACACTAATCAGAGTTTAAATGGGAAAC
Found at i:49201258 original size:79 final size:81
Alignment explanation
Indices: 49201122--49201306 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
49201112 TTGAATGATG
*
49201122 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
49201186 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
49201201 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
49201263 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
49201281 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
49201307 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:49201320 original size:40 final size:40
Alignment explanation
Indices: 49201123--49201306 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
49201113 TGAATGATGT
* * * *
49201123 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
49201163 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
49201203 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
49201241 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
49201282 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
49201307 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:49201328 original size:79 final size:79
Alignment explanation
Indices: 49201175--49201339 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
49201165 GGACTAAGAT
* **
49201175 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
49201240 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
49201254 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
49201317 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
49201333 CCGAAGG
1 CCGAAGG
49201340 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:49217447 original size:198 final size:198
Alignment explanation
Indices: 49217109--49217503 Score: 763
Period size: 198 Copynumber: 2.0 Consensus size: 198
49217099 GAATATATCC
*
49217109 GGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTATGACCCGAAGGTAAATGTG
1 GGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGTAAATGTG
49217174 TTTGCGGCTATATTCGGTTAAATACCGAAGAAACTTGGGTTTGAATGTGAGCGTTTTGTGCTGTA
66 TTTGCGGCTATATTCGGTTAAATACCGAAGAAACTTGGGTTTGAATGTGAGCGTTTTGTGCTGTA
49217239 ACTAATTCAATAAATATGCTCGACCAACCCGAACGATAAGGTATGTTTGCATGTGCATTGGAAAA
131 ACTAATTCAATAAATATGCTCGACCAACCCGAACGATAAGGTATGTTTGCATGTGCATTGGAAAA
49217304 GTT
196 GTT
* *
49217307 GGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATGTCCGGGTTAAGACCCGAAGGTAAATGTG
1 GGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGTAAATGTG
49217372 TTTGCGGCTATATTCGGTTAAATACCGAAGAAACTTGGGTTTGAATGTGAGCGTTTTGTGCTGTA
66 TTTGCGGCTATATTCGGTTAAATACCGAAGAAACTTGGGTTTGAATGTGAGCGTTTTGTGCTGTA
49217437 ACTAATTCAATAAATATGCTCGACCAACCCGAACGATAAGGTATGTTTGCATGTGCATTGGAAAA
131 ACTAATTCAATAAATATGCTCGACCAACCCGAACGATAAGGTATGTTTGCATGTGCATTGGAAAA
49217502 GT
196 GT
49217504 CGATTCGTTT
Statistics
Matches: 194, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
198 194 1.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (198 bp):
GGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGTAAATGTG
TTTGCGGCTATATTCGGTTAAATACCGAAGAAACTTGGGTTTGAATGTGAGCGTTTTGTGCTGTA
ACTAATTCAATAAATATGCTCGACCAACCCGAACGATAAGGTATGTTTGCATGTGCATTGGAAAA
GTT
Found at i:49218333 original size:99 final size:99
Alignment explanation
Indices: 49218162--49218360 Score: 371
Period size: 99 Copynumber: 2.0 Consensus size: 99
49218152 AAAATCACAA
*
49218162 AAATTTGTAGGAATGGAATTAAATAGTTAATAAATTATGTAATCGAACCGTGATGAATCTATTTT
1 AAATTTGTAGGAATGGAATTAAATAGTGAATAAATTATGTAATCGAACCGTGATGAATCTATTTT
49218227 CATATGAAAGTAACGAAACAATCATATGAACAGT
66 CATATGAAAGTAACGAAACAATCATATGAACAGT
* *
49218261 AAATTTGTAGGAATGGAATTAAATAGTGAATAAATTATTTAATCGAACCTTGATGAATCTATTTT
1 AAATTTGTAGGAATGGAATTAAATAGTGAATAAATTATGTAATCGAACCGTGATGAATCTATTTT
49218326 CATATGAAAGTAACGAAACAATCATATGAACAGT
66 CATATGAAAGTAACGAAACAATCATATGAACAGT
49218360 A
1 A
49218361 TATTAAGAGA
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
99 97 1.00
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.32
Consensus pattern (99 bp):
AAATTTGTAGGAATGGAATTAAATAGTGAATAAATTATGTAATCGAACCGTGATGAATCTATTTT
CATATGAAAGTAACGAAACAATCATATGAACAGT
Found at i:49221529 original size:61 final size:62
Alignment explanation
Indices: 49221446--49221569 Score: 223
Period size: 61 Copynumber: 2.0 Consensus size: 62
49221436 CATTTACATG
*
49221446 TCCATATGGTACGTTTTCTTATCGAAGAATCCCTTTTGGATTGTGTAATGATCTTAC-ATTT
1 TCCATATGGTACGTTTTCTTATCGAAGAATCCCTTTTGCATTGTGTAATGATCTTACTATTT
*
49221507 TCCATATGGTACGTTTTGTTATCGAAGAATCCCTTTTGCATTGTGTAATGATCTTACTATTT
1 TCCATATGGTACGTTTTCTTATCGAAGAATCCCTTTTGCATTGTGTAATGATCTTACTATTT
49221569 T
1 T
49221570 TCAATGTTGC
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
61 55 0.92
62 5 0.08
ACGTcount: A:0.23, C:0.16, G:0.16, T:0.45
Consensus pattern (62 bp):
TCCATATGGTACGTTTTCTTATCGAAGAATCCCTTTTGCATTGTGTAATGATCTTACTATTT
Found at i:49225281 original size:15 final size:16
Alignment explanation
Indices: 49225256--49225285 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
49225246 CCAAGTGGTT
49225256 CACTCGTTTTGAGCGA
1 CACTCGTTTTGAGCGA
49225272 CACT-GTTTTGAGCG
1 CACTCGTTTTGAGCG
49225286 GTTTGACAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.17, C:0.23, G:0.27, T:0.33
Consensus pattern (16 bp):
CACTCGTTTTGAGCGA
Found at i:49226985 original size:10 final size:10
Alignment explanation
Indices: 49226955--49226988 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
49226945 TATCTGCATC
*
49226955 TATCAAAAATA
1 TATC-AAAATT
49226966 TATCAAAATT
1 TATCAAAATT
49226976 TATCAAAATT
1 TATCAAAATT
49226986 TAT
1 TAT
49226989 TATAAAATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 18 0.82
11 4 0.18
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (10 bp):
TATCAAAATT
Found at i:49227410 original size:16 final size:16
Alignment explanation
Indices: 49227389--49227427 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
49227379 AACCATGCAA
49227389 TACATTTAGATTTGCC
1 TACATTTAGATTTGCC
49227405 TACATTTAGATTTGCC
1 TACATTTAGATTTGCC
49227421 TACATTT
1 TACATTT
49227428 CTTATATTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.26, C:0.18, G:0.10, T:0.46
Consensus pattern (16 bp):
TACATTTAGATTTGCC
Found at i:49229106 original size:30 final size:30
Alignment explanation
Indices: 49229050--49229107 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
49229040 ATTTTAGGAT
* *
49229050 CCACACGGGCTGGACACATGCTCATGTGAG
1 CCACACGGGCTAGACACAGGCTCATGTGAG
*
49229080 CCACATGGGCTAGACACACGGC-CATGTG
1 CCACACGGGCTAGACACA-GGCTCATGTG
49229108 CCAGCCCGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.24, C:0.31, G:0.29, T:0.16
Consensus pattern (30 bp):
CCACACGGGCTAGACACAGGCTCATGTGAG
Found at i:49233865 original size:5 final size:6
Alignment explanation
Indices: 49233852--49233878 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
49233842 AAGCATTTAG
49233852 TTTATT TTTATT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTT
49233879 GCTATCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:49245428 original size:17 final size:19
Alignment explanation
Indices: 49245406--49245442 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
49245396 CCATGTCAGC
49245406 AAAAA-TAAAATT-ATAAA
1 AAAAATTAAAATTAATAAA
49245423 AAAAATTAAAATTAATAAA
1 AAAAATTAAAATTAATAAA
49245442 A
1 A
49245443 TATATAGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.28
18 7 0.39
19 6 0.33
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAAATTAAAATTAATAAA
Found at i:49245937 original size:18 final size:20
Alignment explanation
Indices: 49245914--49245952 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
49245904 ATTCTATATA
49245914 TAAATAT-TTAT-TAATTTT
1 TAAATATATTATATAATTTT
*
49245932 TAAATATATTTTATAATTTT
1 TAAATATATTATATAATTTT
49245952 T
1 T
49245953 TATTTTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 3 0.17
20 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TAAATATATTATATAATTTT
Found at i:49246713 original size:21 final size:20
Alignment explanation
Indices: 49246662--49246710 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
49246652 TGTCTCTTGA
*
49246662 ATTGTTTTATTTATAAGATT
1 ATTGTTTTATTTATAAAATT
*
49246682 ATTAATTTTATTTATAAAATT
1 ATT-GTTTTATTTATAAAATT
49246703 ATTGTTTT
1 ATTGTTTT
49246711 TATAAATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (20 bp):
ATTGTTTTATTTATAAAATT
Found at i:49248723 original size:3 final size:3
Alignment explanation
Indices: 49248715--49248745 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
49248705 ATTACATCCA
49248715 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
49248746 TTACATCCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:49248830 original size:112 final size:112
Alignment explanation
Indices: 49248633--49248852 Score: 440
Period size: 112 Copynumber: 2.0 Consensus size: 112
49248623 AAGTTTCATC
49248633 ATTACATCCACTTAAAATAAATCACCACCTACTACACTAACAAACTTAGTTGGAATACAACTAAG
1 ATTACATCCACTTAAAATAAATCACCACCTACTACACTAACAAACTTAGTTGGAATACAACTAAG
49248698 TTACATCATTACATCCAAATAATAATAATAATAATAATAATAATAAT
66 TTACATCATTACATCCAAATAATAATAATAATAATAATAATAATAAT
49248745 ATTACATCCACTTAAAATAAATCACCACCTACTACACTAACAAACTTAGTTGGAATACAACTAAG
1 ATTACATCCACTTAAAATAAATCACCACCTACTACACTAACAAACTTAGTTGGAATACAACTAAG
49248810 TTACATCATTACATCCAAATAATAATAATAATAATAATAATAA
66 TTACATCATTACATCCAAATAATAATAATAATAATAATAATAA
49248853 AACATGTGAT
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
112 108 1.00
ACGTcount: A:0.49, C:0.19, G:0.04, T:0.28
Consensus pattern (112 bp):
ATTACATCCACTTAAAATAAATCACCACCTACTACACTAACAAACTTAGTTGGAATACAACTAAG
TTACATCATTACATCCAAATAATAATAATAATAATAATAATAATAAT
Found at i:49248835 original size:3 final size:3
Alignment explanation
Indices: 49248827--49248852 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
49248817 ATTACATCCA
49248827 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
49248853 AACATGTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:49252784 original size:32 final size:32
Alignment explanation
Indices: 49252742--49252817 Score: 125
Period size: 32 Copynumber: 2.4 Consensus size: 32
49252732 ACCTAACATT
*
49252742 CAAACCCAAAATGACCTGAATTCTAAATGATC
1 CAAACCCAAAATGACCTGAATTCAAAATGATC
* *
49252774 CAAACTCAAAATGATCTGAATTCAAAATGATC
1 CAAACCCAAAATGACCTGAATTCAAAATGATC
49252806 CAAACCCAAAAT
1 CAAACCCAAAAT
49252818 TACCCCACCT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.47, C:0.24, G:0.08, T:0.21
Consensus pattern (32 bp):
CAAACCCAAAATGACCTGAATTCAAAATGATC
Found at i:49252804 original size:16 final size:16
Alignment explanation
Indices: 49252748--49252805 Score: 71
Period size: 16 Copynumber: 3.6 Consensus size: 16
49252738 CATTCAAACC
*
49252748 CAAAATGACCTGAATT
1 CAAAATGATCTGAATT
* ** *
49252764 CTAAATGATCCAAACT
1 CAAAATGATCTGAATT
49252780 CAAAATGATCTGAATT
1 CAAAATGATCTGAATT
49252796 CAAAATGATC
1 CAAAATGATC
49252806 CAAACCCAAA
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (16 bp):
CAAAATGATCTGAATT
Found at i:49252815 original size:16 final size:16
Alignment explanation
Indices: 49252766--49252817 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
49252756 CCTGAATTCT
49252766 AAATGATCCAAACTCA
1 AAATGATCCAAACTCA
** *
49252782 AAATGATCTGAATTCA
1 AAATGATCCAAACTCA
*
49252798 AAATGATCCAAACCCA
1 AAATGATCCAAACTCA
49252814 AAAT
1 AAAT
49252818 TACCCCACCT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.50, C:0.21, G:0.08, T:0.21
Consensus pattern (16 bp):
AAATGATCCAAACTCA
Found at i:49272371 original size:24 final size:24
Alignment explanation
Indices: 49272344--49272412 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 24
49272334 GGAATCGGTG
* *
49272344 AGCTCTCAGGAGCTGAAATCGATA
1 AGCTCTCACGAGCTAAAATCGATA
* *
49272368 AGCT-TATACGAGGTAAAAATCGATA
1 AGCTCT-CACGAGCT-AAAATCGATA
49272393 AGCTCTCACGAGCTAAAATC
1 AGCTCTCACGAGCTAAAATC
49272413 AATTATCCCT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
23 1 0.03
24 15 0.42
25 19 0.53
26 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (24 bp):
AGCTCTCACGAGCTAAAATCGATA
Found at i:49275686 original size:11 final size:11
Alignment explanation
Indices: 49275670--49275708 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
49275660 GACCCTCTTT
49275670 AAAATTATAAA
1 AAAATTATAAA
49275681 AAAATTATAAA
1 AAAATTATAAA
*
49275692 CTATAATTATAAA
1 --AAAATTATAAA
49275705 AAAA
1 AAAA
49275709 AAACTTCGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 14 0.58
13 10 0.42
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (11 bp):
AAAATTATAAA
Found at i:49275764 original size:16 final size:18
Alignment explanation
Indices: 49275743--49275778 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
49275733 CCATGTCAGC
49275743 AAAAA-TAAAATT-ATAA
1 AAAAATTAAAATTAATAA
49275759 AAAAATTAAAATTAATAA
1 AAAAATTAAAATTAATAA
49275777 AA
1 AA
49275779 TATATAGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.28
17 7 0.39
18 6 0.33
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (18 bp):
AAAAATTAAAATTAATAA
Found at i:49277053 original size:21 final size:21
Alignment explanation
Indices: 49277008--49277055 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
49276998 TCTTGAATTG
** *
49277008 TTTTATTTATAAGGTTGTTAA
1 TTTTATTTATAAAATTATTAA
*
49277029 TTTTATTTATAAAATTATTAT
1 TTTTATTTATAAAATTATTAA
49277050 TTTTAT
1 TTTTAT
49277056 AAATAAATTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (21 bp):
TTTTATTTATAAAATTATTAA
Found at i:49279683 original size:18 final size:18
Alignment explanation
Indices: 49279657--49279692 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
49279647 AATCTACTAA
*
49279657 GTTCTGGGTTAATTACTG
1 GTTCCGGGTTAATTACTG
49279675 GTTCCGGGTTAATTACTG
1 GTTCCGGGTTAATTACTG
49279693 AAGCTTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.14, G:0.28, T:0.42
Consensus pattern (18 bp):
GTTCCGGGTTAATTACTG
Found at i:49281419 original size:12 final size:12
Alignment explanation
Indices: 49281398--49281440 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
49281388 ATTAGTATAA
*
49281398 TATTACTATTAC
1 TATTATTATTAC
*
49281410 TATTATTATTAT
1 TATTATTATTAC
* *
49281422 TGTTATTAATAC
1 TATTATTATTAC
49281434 TATTATT
1 TATTATT
49281441 TTTTTTCTCT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (12 bp):
TATTATTATTAC
Found at i:49282169 original size:17 final size:18
Alignment explanation
Indices: 49282149--49282186 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
49282139 TTCCTTTATA
*
49282149 TTTAATTTTTTTC-TTTG
1 TTTAATTTTCTTCTTTTG
49282166 TTT-ATTTTCTTCTTTTG
1 TTTAATTTTCTTCTTTTG
49282183 TTTA
1 TTTA
49282187 TTGATTTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.11, C:0.08, G:0.05, T:0.76
Consensus pattern (18 bp):
TTTAATTTTCTTCTTTTG
Found at i:49282178 original size:16 final size:17
Alignment explanation
Indices: 49282153--49282188 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
49282143 TTTATATTTA
*
49282153 ATTTTTTTC-TTTGTTT
1 ATTTTCTTCTTTTGTTT
49282169 ATTTTCTTCTTTTGTTT
1 ATTTTCTTCTTTTGTTT
49282186 ATT
1 ATT
49282189 GATTTATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.08, C:0.08, G:0.06, T:0.78
Consensus pattern (17 bp):
ATTTTCTTCTTTTGTTT
Found at i:49287521 original size:28 final size:28
Alignment explanation
Indices: 49287481--49287536 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
49287471 TTACATTGGA
49287481 ATAATGATTAATGAACTAATAAAACTTT
1 ATAATGATTAATGAACTAATAAAACTTT
*
49287509 ATAATGATTAATGGACTAATAAAACTTT
1 ATAATGATTAATGAACTAATAAAACTTT
49287537 CACAAGGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.36
Consensus pattern (28 bp):
ATAATGATTAATGAACTAATAAAACTTT
Found at i:49288345 original size:44 final size:45
Alignment explanation
Indices: 49288261--49288347 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 45
49288251 CTTTATCTCC
* *
49288261 CTGGTCAGCAGTGGAATATGTTTGAAGATTGTGAATCCTATCTTT
1 CTGGTCAACAGTGGAATATGGTTGAAGATTGTGAATCCTATCTTT
49288306 CTGGTCAACAGTGGAATA-GGTTGAAGATTGTGAATCCTATCT
1 CTGGTCAACAGTGGAATATGGTTGAAGATTGTGAATCCTATCT
49288348 CCTTGAGCAG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 23 0.57
45 17 0.43
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.34
Consensus pattern (45 bp):
CTGGTCAACAGTGGAATATGGTTGAAGATTGTGAATCCTATCTTT
Found at i:49288797 original size:100 final size:100
Alignment explanation
Indices: 49288639--49288831 Score: 298
Period size: 100 Copynumber: 1.9 Consensus size: 100
49288629 AAACCACGGC
*
49288639 GGTGAATCTTACTCCTCTAGCAGTGTAATGGAACAGAATGAAGCTACGACGGCGAATCTTGTTTC
1 GGTGAATCTTACTCCTCTAGCAGTGTAATGGAACAGAATGAAGCTACGACGACGAATCTTGTTTC
* ** *
49288704 CTCAACATTGTGATTTAAAAGATTGAAGTCGTAAT
66 CCCAACATTGCAATTTAAAAGACTGAAGTCGTAAT
* * *
49288739 GGTGAATCTTACTTCC-CTGGCAGTGTAGTGGAACAGACTGAAGCTACGACGACGAATCTTGTTT
1 GGTGAATCTTAC-TCCTCTAGCAGTGTAATGGAACAGAATGAAGCTACGACGACGAATCTTGTTT
49288803 CCCCAACATTGCAATTTAAAAGACTGAAG
65 CCCCAACATTGCAATTTAAAAGACTGAAG
49288832 ATGGTGAATC
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
100 81 0.96
101 3 0.04
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (100 bp):
GGTGAATCTTACTCCTCTAGCAGTGTAATGGAACAGAATGAAGCTACGACGACGAATCTTGTTTC
CCCAACATTGCAATTTAAAAGACTGAAGTCGTAAT
Found at i:49288908 original size:44 final size:44
Alignment explanation
Indices: 49288838--49289177 Score: 209
Period size: 44 Copynumber: 7.8 Consensus size: 44
49288828 GAAGATGGTG
* *
49288838 AATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTAAATCCAGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAATCCAGT
* *
49288882 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAG-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAATC-CAGT
* * * *** *
49288927 -ATCTTATCTCTCTGAAATTGCAG-AGAGCAGATCGCAT---TT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAATCCAGT
* * * * * * *
49288966 AAGTCTTATCTCCCTAAAATTGCAGTAGAGCAGACTAAGT-AAGC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAATCCAGT
* ** *
49289010 AAGTCTCATC-CTCCTGAAGTTGCAGT-GAGGCAGACCGAAGATGGCA--
1 AA-TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAA-AT-CCAGT
* * *
49289056 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAATCCAGT
* * * **
49289100 AATCCTATCTCTCTGAAGTTGCAGTGGAGC-GAATTAAAACCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ATTAAATCCAGT
* * *
49289144 AATCTTATCTCTCTGAAGTTGCAGTAGAGTAGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
49289178 CGTATCGGGT
Statistics
Matches: 233, Mismatches: 43, Indels: 40
0.74 0.14 0.13
Matches are distributed among these distances:
40 1 0.00
41 20 0.09
42 13 0.06
43 12 0.05
44 144 0.62
45 33 0.14
46 9 0.04
48 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAATCCAGT
Found at i:49289217 original size:218 final size:219
Alignment explanation
Indices: 49288823--49289301 Score: 615
Period size: 218 Copynumber: 2.2 Consensus size: 219
49288813 GCAATTTAAA
* ** * * * *
49288823 AGACTGAAGATGGTGAATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTAAATCCAGTAATCCT
1 AGACCGAAGATGGCAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGCCAATAATCCT
* * *
49288888 ATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAATTGCAGAGA
66 ATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAACCACAAATCTTATCTCTCTGAAATTGCAGAGA
* * *
49288953 GCAGATCGCATTTAAGTCTTATCTCCCTAAAATTGCAGTAGAGCAGACT-AAGTAAGCAAGTCTC
131 GCAGATCGCATTCAAGTCTTATCTCCCTAAAATTGCAATAGAGCAGACTCAAGAAAGCAAGTCTC
* * *
49289017 ATCCTCCTGAAGTTGCAGTGAGGC
196 ATCCCCCTAAAATTGCAGTGAGGC
*
49289041 AGACCGAAGATGGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
1 AGACCGAAGATGGCAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGCCAATAATCCT
* *
49289106 ATCTCTCTGAAGTTGCAGTGGAGCGAATTAAAACCACAAATCTTATCTCTCTGAAGTTGCAGTAG
66 ATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAACCACAAATCTTATCTCTCTGAAATTGCAG-AG
* * ** * * * *
49289171 AGTAGATCGTA-TCGGGTCTTATCTCTCTGAAGTTGCAATGGAGCAGACTCAAGAAAGCAAGTCT
130 AGCAGATCGCATTCAAGTCTTATCTCCCTAAAATTGCAATAGAGCAGACTCAAGAAAGCAAGTCT
* *
49289235 TATCCCCCTAAAATTGCAGTGGGGC
195 CATCCCCCTAAAATTGCAGTGAGGC
* ** *
49289260 AGA-CTAA-ATAAACAAATCCTATCTCCCTAAAGTTGTAGTGGA
1 AGACCGAAGAT-GGCAAATCTTATCTCCCTAAAGTTGTAGTGGA
49289302 CTGTATTAGA
Statistics
Matches: 224, Mismatches: 34, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
217 2 0.01
218 175 0.78
219 47 0.21
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (219 bp):
AGACCGAAGATGGCAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGCCAATAATCCT
ATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAACCACAAATCTTATCTCTCTGAAATTGCAGAGA
GCAGATCGCATTCAAGTCTTATCTCCCTAAAATTGCAATAGAGCAGACTCAAGAAAGCAAGTCTC
ATCCCCCTAAAATTGCAGTGAGGC
Found at i:49289252 original size:45 final size:44
Alignment explanation
Indices: 49289203--49289290 Score: 104
Period size: 45 Copynumber: 2.0 Consensus size: 44
49289193 CTCTCTGAAG
* * *
49289203 TTGCAATGGAGCAGACTCAAGAAAGCAAGTCTTATCCCCCTAAAA
1 TTGCAATGGAGCAGACTAAAGAAA-CAAATCCTATCCCCCTAAAA
* * * *
49289248 TTGCAGTGGGGCAGACTAAATAAACAAATCCTATCTCCCTAAA
1 TTGCAATGGAGCAGACTAAAGAAACAAATCCTATCCCCCTAAA
49289291 GTTGTAGTGG
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
44 16 0.44
45 20 0.56
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.22
Consensus pattern (44 bp):
TTGCAATGGAGCAGACTAAAGAAACAAATCCTATCCCCCTAAAA
Found at i:49289300 original size:44 final size:45
Alignment explanation
Indices: 49288972--49289301 Score: 148
Period size: 44 Copynumber: 7.5 Consensus size: 45
49288962 ATTTAAGTCT
* * * *
49288972 TATCTCCCTAAAATTGCAGTAGAGCAGACT-AAGTAAGCAAGT-C
1 TATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGAAAGCAAATCC
* ** ** *
49289015 TCATC-CTCCTGAAGTTGCAGT-GAGGCAGACCGAAGATGGCAAATCT
1 T-ATCTC-CCTAAAGTTGCAGTGGA-GCAGACTAAAGAAAGCAAATCC
* * *
49289061 TATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAA--TAATCC
1 TATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAG-AAAGCAAATCC
* * * * *
49289105 TATCTCTCTGAAGTTGCAGTGGAGC-GAATTAAA-ACCA-CAAATCT
1 TATCTCCCTAAAGTTGCAGTGGAGCAG-ACTAAAGA-AAGCAAATCC
* * * * * * * *** *
49289149 TATCTCTCTGAAGTTGCAGTAGAGTAGA-T--CG-TATCGGGTCT
1 TATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGAAAGCAAATCC
* * * * * *
49289190 TATCTCTCTGAAGTTGCAATGGAGCAGACTCAAGAAAGCAAGTCT
1 TATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGAAAGCAAATCC
* * * *
49289235 TATCCCCCTAAAATTGCAGTGGGGCAGACTAAATAAA-CAAATCC
1 TATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGAAAGCAAATCC
*
49289279 TATCTCCCTAAAGTTGTAGTGGA
1 TATCTCCCTAAAGTTGCAGTGGA
49289302 CTGTATTAGA
Statistics
Matches: 217, Mismatches: 52, Indels: 35
0.71 0.17 0.12
Matches are distributed among these distances:
40 1 0.00
41 29 0.13
42 1 0.00
43 7 0.03
44 107 0.49
45 68 0.31
46 4 0.02
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (45 bp):
TATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGAAAGCAAATCC
Found at i:49290736 original size:3 final size:3
Alignment explanation
Indices: 49290728--49290791 Score: 92
Period size: 3 Copynumber: 21.3 Consensus size: 3
49290718 ATTAGTTTAA
* * * *
49290728 TAT TAT TAT TAC TAT TAT TAT TAT TGT TAT TAA TAC TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
49290776 TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT T
49290792 CTCTATATAT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:49290738 original size:21 final size:20
Alignment explanation
Indices: 49290712--49290791 Score: 71
Period size: 18 Copynumber: 4.1 Consensus size: 20
49290702 ATTTGTTTTT
*
49290712 TTATTAATTAGTTTAATATTA
1 TTATTAATTA-TTTATTATTA
*
49290733 TTATTACTATTA-TTATTATTG
1 TTATTA--ATTATTTATTATTA
*
49290754 TTATTAA-TA-CTATTATTA
1 TTATTAATTATTTATTATTA
49290772 TTATT-ATTA-TTATTATTA
1 TTATTAATTATTTATTATTA
49290790 TT
1 TT
49290792 CTCTATATAT
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
17 1 0.02
18 26 0.51
19 1 0.02
21 19 0.37
23 4 0.08
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (20 bp):
TTATTAATTATTTATTATTA
Found at i:49291503 original size:16 final size:17
Alignment explanation
Indices: 49291484--49291522 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
49291474 TTACTTTATA
*
49291484 TTTATTTTTTTC-TTTG
1 TTTATTTTCTTCATTTG
49291500 TTTATTTTCTTCATTTG
1 TTTATTTTCTTCATTTG
49291517 TTTATT
1 TTTATT
49291523 GATTTATGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.10, C:0.08, G:0.05, T:0.77
Consensus pattern (17 bp):
TTTATTTTCTTCATTTG
Found at i:49293310 original size:32 final size:32
Alignment explanation
Indices: 49293269--49293344 Score: 125
Period size: 32 Copynumber: 2.4 Consensus size: 32
49293259 ACCTAACATT
49293269 CAAACTCAAAATGACCTGAATTCAAAATGATC
1 CAAACTCAAAATGACCTGAATTCAAAATGATC
* *
49293301 CAAACTCAAAATGATCTGAATTCGAAATGATC
1 CAAACTCAAAATGACCTGAATTCAAAATGATC
*
49293333 CAAACCCAAAAT
1 CAAACTCAAAAT
49293345 CACCCCACCT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.47, C:0.22, G:0.09, T:0.21
Consensus pattern (32 bp):
CAAACTCAAAATGACCTGAATTCAAAATGATC
Found at i:49293344 original size:16 final size:16
Alignment explanation
Indices: 49293269--49293344 Score: 73
Period size: 16 Copynumber: 4.8 Consensus size: 16
49293259 ACCTAACATT
49293269 CAAACTCAAAATGA-C
1 CAAACTCAAAATGATC
* *
49293284 CTGAATTCAAAATGATC
1 C-AAACTCAAAATGATC
49293301 CAAACTCAAAATGATC
1 CAAACTCAAAATGATC
** * *
49293317 TGAATTCGAAATGATC
1 CAAACTCAAAATGATC
*
49293333 CAAACCCAAAAT
1 CAAACTCAAAAT
49293345 CACCCCACCT
Statistics
Matches: 46, Mismatches: 13, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
15 1 0.02
16 43 0.93
17 2 0.04
ACGTcount: A:0.47, C:0.22, G:0.09, T:0.21
Consensus pattern (16 bp):
CAAACTCAAAATGATC
Found at i:49295094 original size:20 final size:21
Alignment explanation
Indices: 49295071--49295109 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
49295061 TATATTTAAC
49295071 ATTTTTA-TATGTTTTTAAAG
1 ATTTTTAGTATGTTTTTAAAG
*
49295091 ATTTTTAGTATTTTTTTAA
1 ATTTTTAGTATGTTTTTAA
49295110 TTTTTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (21 bp):
ATTTTTAGTATGTTTTTAAAG
Found at i:49303642 original size:22 final size:22
Alignment explanation
Indices: 49303595--49303644 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
49303585 CTTTTACGTT
* *
49303595 AAAAA-AGATGGAGAAGGGAGA
1 AAAAATAGAGGGAGAAGGCAGA
49303616 AAAAATAGAGGGAGAA-GCAGA
1 AAAAATAGAGGGAGAAGGCAGA
49303637 AGAAAATA
1 A-AAAATA
49303645 AAAAAAAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.60, C:0.02, G:0.32, T:0.06
Consensus pattern (22 bp):
AAAAATAGAGGGAGAAGGCAGA
Found at i:49307421 original size:26 final size:26
Alignment explanation
Indices: 49307392--49307441 Score: 84
Period size: 26 Copynumber: 1.9 Consensus size: 26
49307382 ATGTTAGGAT
49307392 TATATTTCATTATAGGTT-TCTTTTGA
1 TATATTTCATTATA-GTTATCTTTTGA
49307418 TATATTTCATTATAGTTATCTTTT
1 TATATTTCATTATAGTTATCTTTT
49307442 AGTGTTCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 3 0.13
26 20 0.87
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.60
Consensus pattern (26 bp):
TATATTTCATTATAGTTATCTTTTGA
Found at i:49312250 original size:52 final size:52
Alignment explanation
Indices: 49312179--49312287 Score: 175
Period size: 52 Copynumber: 2.1 Consensus size: 52
49312169 ATTAAAATAT
49312179 ATACATATTTGGAATATTTTGCTATGTGATTCGGAAAAAA-GGAATAAATAGA
1 ATACATATTTGGAATATTTTGCTATGTGATTC-GAAAAAAGGGAATAAATAGA
* *
49312231 ATACATATTTGTAATATTTTGCTATGTGATTCGAAAAAAGGGGAATAAATAGC
1 ATACATATTTGGAATATTTTGCTATGTGATTCGAAAAAA-GGGAATAAATAGA
49312284 ATAC
1 ATAC
49312288 TAAAAATTCG
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
51 7 0.13
52 31 0.58
53 15 0.28
ACGTcount: A:0.41, C:0.07, G:0.18, T:0.33
Consensus pattern (52 bp):
ATACATATTTGGAATATTTTGCTATGTGATTCGAAAAAAGGGAATAAATAGA
Found at i:49316513 original size:54 final size:54
Alignment explanation
Indices: 49316441--49316549 Score: 200
Period size: 54 Copynumber: 2.0 Consensus size: 54
49316431 ATTTTTCTTT
*
49316441 TACCTATTATAACCTAGTTTTTATAATCATTAACCTTTTTATTTTACCTTTTTA
1 TACCTATTATAACCTAGTTTTTACAATCATTAACCTTTTTATTTTACCTTTTTA
*
49316495 TACCTATTATAACTTAGTTTTTACAATCATTAACCTTTTTATTTTACCTTTTTA
1 TACCTATTATAACCTAGTTTTTACAATCATTAACCTTTTTATTTTACCTTTTTA
49316549 T
1 T
49316550 GCCCAAAATT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.28, C:0.17, G:0.02, T:0.54
Consensus pattern (54 bp):
TACCTATTATAACCTAGTTTTTACAATCATTAACCTTTTTATTTTACCTTTTTA
Found at i:49317694 original size:20 final size:19
Alignment explanation
Indices: 49317666--49317709 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
49317656 ATAATTATTT
* *
49317666 TTTTAATATTTAAAATATA
1 TTTTAATATTCAAAATAAA
*
49317685 TTTTATATATTCAAATTAAA
1 TTTTA-ATATTCAAAATAAA
49317705 TTTTA
1 TTTTA
49317710 CGAACGATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTTAATATTCAAAATAAA
Found at i:49318909 original size:22 final size:23
Alignment explanation
Indices: 49318884--49318930 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
49318874 TAATTATCTA
49318884 TTGTAGC-AATATATATATCCAC
1 TTGTAGCAAATATATATATCCAC
*
49318906 TTGTAGCAAAATGTATATATCCAC
1 TTGTAGC-AAATATATATATCCAC
49318930 T
1 T
49318931 CGAAAATGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.32
24 15 0.68
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (23 bp):
TTGTAGCAAATATATATATCCAC
Found at i:49319645 original size:20 final size:20
Alignment explanation
Indices: 49319620--49319679 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
49319610 TAAATCACAA
49319620 GTACTGATACATATTATAAG
1 GTACTGATACATATTATAAG
*
49319640 GTACTGATACATCCTTATAA-
1 GTACTGATACAT-ATTATAAG
* *
49319660 GTAATGATACTTATTATAAG
1 GTACTGATACATATTATAAG
49319680 TGCCGATACT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
19 6 0.18
20 22 0.65
21 6 0.18
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (20 bp):
GTACTGATACATATTATAAG
Found at i:49324164 original size:21 final size:21
Alignment explanation
Indices: 49324138--49324185 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
49324128 AAAAAGGGCA
*
49324138 AAGTCTCAATACTTATGAGCT
1 AAGTCTCAATACTTATGAGCC
*
49324159 AAGTCTCAATACTTTTGAGCC
1 AAGTCTCAATACTTATGAGCC
49324180 AAGTCT
1 AAGTCT
49324186 TGAGATTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (21 bp):
AAGTCTCAATACTTATGAGCC
Found at i:49328270 original size:18 final size:19
Alignment explanation
Indices: 49328247--49328282 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
49328237 TCCAGTTACT
49328247 TAAAGAGCTCAA-AACAAA
1 TAAAGAGCTCAAGAACAAA
*
49328265 TAAAGAGTTCAAGAACAA
1 TAAAGAGCTCAAGAACAA
49328283 TACCAAAGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.58, C:0.14, G:0.14, T:0.14
Consensus pattern (19 bp):
TAAAGAGCTCAAGAACAAA
Found at i:49331796 original size:17 final size:17
Alignment explanation
Indices: 49331760--49331806 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
49331750 CAAAAGGTTG
* *
49331760 TTATTTTGTAGTTTTTAT
1 TTATTTTCTA-TTGTTAT
49331778 TTATTTTCTATTGTTAT
1 TTATTTTCTATTGTTAT
49331795 TT-TTTTACTATT
1 TTATTTT-CTATT
49331807 ATATACATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 4 0.15
17 13 0.50
18 9 0.35
ACGTcount: A:0.17, C:0.04, G:0.06, T:0.72
Consensus pattern (17 bp):
TTATTTTCTATTGTTAT
Found at i:49332705 original size:23 final size:25
Alignment explanation
Indices: 49332651--49332699 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
49332641 TATGTACACA
*
49332651 TATATATTTTTAACGAATATTTTCC
1 TATATTTTTTTAACGAATATTTTCC
*
49332676 TATATTTTTTTAATGAATATTTTC
1 TATATTTTTTTAACGAATATTTTC
49332700 ATATTTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.31, C:0.08, G:0.04, T:0.57
Consensus pattern (25 bp):
TATATTTTTTTAACGAATATTTTCC
Found at i:49338319 original size:20 final size:21
Alignment explanation
Indices: 49338282--49338321 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
49338272 TGGTTGTTGT
*
49338282 TGGTTTTCCACTTCTCATTTA
1 TGGTTTCCCACTTCTCATTTA
*
49338303 TGGTTTCCCA-TTGTCATTT
1 TGGTTTCCCACTTCTCATTT
49338322 TTGCCACTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.12, C:0.23, G:0.12, T:0.53
Consensus pattern (21 bp):
TGGTTTCCCACTTCTCATTTA
Found at i:49349808 original size:39 final size:39
Alignment explanation
Indices: 49349746--49349833 Score: 140
Period size: 39 Copynumber: 2.3 Consensus size: 39
49349736 AACGGTAACA
* * * *
49349746 GTAATAGTAACAGTATTCGACACACAAAGTGCCGAATTG
1 GTAACAGTAACAATATTCAACACACAAAGTGCCGAATCG
49349785 GTAACAGTAACAATATTCAACACACAAAGTGCCGAATCG
1 GTAACAGTAACAATATTCAACACACAAAGTGCCGAATCG
49349824 GTAACAGTAA
1 GTAACAGTAA
49349834 TAGTAGTCGG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.20
Consensus pattern (39 bp):
GTAACAGTAACAATATTCAACACACAAAGTGCCGAATCG
Found at i:49353655 original size:101 final size:101
Alignment explanation
Indices: 49353535--49353732 Score: 351
Period size: 101 Copynumber: 2.0 Consensus size: 101
49353525 TCAATGCAAG
* * *
49353535 GACCATCAAATACAATTTTTTTATTATCGTGGTAGACAACCATTGGATGAACTTTATGAAGCTTA
1 GACCAGCAAATACAATTTTTTTATGATCATGGTAGACAACCATTGGATGAACTTTATGAAGCTTA
49353600 ATTTTTCATTAAATTAGACCTTTGTTCTAGATGTTT
66 ATTTTTCATTAAATTAGACCTTTGTTCTAGATGTTT
*
49353636 GACCAGCAAATACAATTTTTTTATGATCATGGTAGACAATCATTGGATGAACTTTATGAAGCTTA
1 GACCAGCAAATACAATTTTTTTATGATCATGGTAGACAACCATTGGATGAACTTTATGAAGCTTA
*
49353701 ATTTTTCATTAAATTGGACCTTTGTTCTAGAT
66 ATTTTTCATTAAATTAGACCTTTGTTCTAGAT
49353733 TTTTCCTAAA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
101 92 1.00
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (101 bp):
GACCAGCAAATACAATTTTTTTATGATCATGGTAGACAACCATTGGATGAACTTTATGAAGCTTA
ATTTTTCATTAAATTAGACCTTTGTTCTAGATGTTT
Found at i:49366705 original size:18 final size:19
Alignment explanation
Indices: 49366682--49366719 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
49366672 GGAAGCAAGC
*
49366682 AATGATTGAAGA-AATCAG
1 AATGATTGAAAAGAATCAG
49366700 AATGATTGAAAAGAATCAG
1 AATGATTGAAAAGAATCAG
49366719 A
1 A
49366720 CCTGGAGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.53, C:0.05, G:0.21, T:0.21
Consensus pattern (19 bp):
AATGATTGAAAAGAATCAG
Found at i:49369076 original size:13 final size:13
Alignment explanation
Indices: 49369058--49369084 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
49369048 TTAATTTATA
49369058 TGTGTGAAAATTT
1 TGTGTGAAAATTT
49369071 TGTGTGAAAATTT
1 TGTGTGAAAATTT
49369084 T
1 T
49369085 ATCGTTTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:49371404 original size:43 final size:42
Alignment explanation
Indices: 49371344--49371465 Score: 163
Period size: 43 Copynumber: 2.9 Consensus size: 42
49371334 TACAACGTCG
* **
49371344 CTAACTTTTGCGGCGCTTCTCCCACAAACGCCGCTATAGGTC
1 CTAACTTTAGCGGCGCTTCTCCCACAAACGCCGCTATAGAAC
*
49371386 CTAACATTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGAAC
1 CTAAC-TTTAGCGGCGCTTCTCCCACAAACGCCGCTATAGAAC
* * *
49371429 ATGATCTTTAGCGGCGCTTCTCTCACAAACGCCGCTA
1 CT-AACTTTAGCGGCGCTTCTCCCACAAACGCCGCTA
49371466 AAGATCATGG
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
42 5 0.07
43 63 0.90
44 2 0.03
ACGTcount: A:0.23, C:0.34, G:0.18, T:0.25
Consensus pattern (42 bp):
CTAACTTTAGCGGCGCTTCTCCCACAAACGCCGCTATAGAAC
Found at i:49371480 original size:43 final size:43
Alignment explanation
Indices: 49371392--49371596 Score: 250
Period size: 43 Copynumber: 4.8 Consensus size: 43
49371382 GGTCCTAACA
** *
49371392 TTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGAACATGATC
1 TTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGAACATGATC
* * * *
49371435 TTTAGCGGCGCTTCTCTCACAAACGCCGCTAAAGATCATGGTC
1 TTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGAACATGATC
* * * * *
49371478 TTTAGTGGCGCTTTTATCACAAACGTCTCTATAGAACATGATT
1 TTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGAACATGATC
*
49371521 TTTAGCGACGCTTTTATCACAAACGCCGCTATAA-AACATGATC
1 TTTAGCGGCGCTTTTATCACAAACGCCGCTA-AAGAACATGATC
* * *
49371564 TTTGGCGGCGCTTTTATAATAAACGCCGCTAAA
1 TTTAGCGGCGCTTTTATCACAAACGCCGCTAAA
49371597 AGTACCGTTC
Statistics
Matches: 137, Mismatches: 24, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
42 2 0.01
43 134 0.98
44 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (43 bp):
TTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGAACATGATC
Found at i:49371499 original size:86 final size:86
Alignment explanation
Indices: 49371348--49371594 Score: 282
Period size: 86 Copynumber: 2.9 Consensus size: 86
49371338 ACGTCGCTAA
* * * * * * **
49371348 CTTTTGCGGCGCTTCTCCCACAAACGCCGCTATAGGTCCT-AACATTTAGCGGCGCTTTTCCCAC
1 CTTTAGCGGCGCTTCTCTCACAAACGCCGCTAAAGATCATGATC-TTTAGCGGCGCTTTTATCAC
49371412 AAACGCCGCTATAGAACATGAT
65 AAACGCCGCTATAGAACATGAT
* *
49371434 CTTTAGCGGCGCTTCTCTCACAAACGCCGCTAAAGATCATGGTCTTTAGTGGCGCTTTTATCACA
1 CTTTAGCGGCGCTTCTCTCACAAACGCCGCTAAAGATCATGATCTTTAGCGGCGCTTTTATCACA
* *
49371499 AACGTCTCTATAGAACATGAT
66 AACGCCGCTATAGAACATGAT
* * * * * * * *
49371520 TTTTAGCGACGCTTTTATCACAAACGCCGCTATAA-AACATGATCTTTGGCGGCGCTTTTATAAT
1 CTTTAGCGGCGCTTCTCTCACAAACGCCGCTA-AAGATCATGATCTTTAGCGGCGCTTTTATCAC
49371584 AAACGCCGCTA
65 AAACGCCGCTA
49371595 AAAGTACCGT
Statistics
Matches: 135, Mismatches: 24, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
86 132 0.98
87 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.29
Consensus pattern (86 bp):
CTTTAGCGGCGCTTCTCTCACAAACGCCGCTAAAGATCATGATCTTTAGCGGCGCTTTTATCACA
AACGCCGCTATAGAACATGAT
Found at i:49373923 original size:21 final size:21
Alignment explanation
Indices: 49373899--49373941 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
49373889 TAAATTATTT
49373899 AAAACCTCAAAATATTTCAAG
1 AAAACCTCAAAATATTTCAAG
* * *
49373920 AAAACCTTAAATTGTTTCAAG
1 AAAACCTCAAAATATTTCAAG
49373941 A
1 A
49373942 CAGACAAAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.49, C:0.16, G:0.07, T:0.28
Consensus pattern (21 bp):
AAAACCTCAAAATATTTCAAG
Found at i:49373936 original size:68 final size:68
Alignment explanation
Indices: 49373852--49373986 Score: 198
Period size: 68 Copynumber: 2.0 Consensus size: 68
49373842 CGAAGACCAT
** *
49373852 AAAACCTCAAAATGTTTCAAGACAGGTAAAGAGATAATAAATTATTTAAAACCTCAAAATATTTC
1 AAAACCTCAAAATGTTTCAAGACAGACAAAGAGATAATAAATCATTTAAAACCTCAAAATATTTC
49373917 AAG
66 AAG
* * * * *
49373920 AAAACCTTAAATTGTTTCAAGACAGACAAAGATATAGTAAATCATTTAAACCCTCAAAATATTTC
1 AAAACCTCAAAATGTTTCAAGACAGACAAAGAGATAATAAATCATTTAAAACCTCAAAATATTTC
49373985 AA
66 AA
49373987 AACAAACAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
68 59 1.00
ACGTcount: A:0.49, C:0.15, G:0.09, T:0.27
Consensus pattern (68 bp):
AAAACCTCAAAATGTTTCAAGACAGACAAAGAGATAATAAATCATTTAAAACCTCAAAATATTTC
AAG
Found at i:49374013 original size:30 final size:30
Alignment explanation
Indices: 49373979--49374071 Score: 109
Period size: 30 Copynumber: 3.1 Consensus size: 30
49373969 ACCCTCAAAA
*
49373979 TATTTCAAAACAAACAAAGAGATAGTAAAT
1 TATTTCAAAACAAACAAAGACATAGTAAAT
* * *
49374009 TATTTCAAGACAACCAAAGATATAGTAAAT
1 TATTTCAAAACAAACAAAGACATAGTAAAT
*
49374039 TA-TT-AAAACAGAGACAAAGACCTAGTAAAT
1 TATTTCAAAACA-A-ACAAAGACATAGTAAAT
49374069 TAT
1 TAT
49374072 AAAAAAAACC
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
28 5 0.09
29 3 0.06
30 45 0.85
ACGTcount: A:0.53, C:0.12, G:0.11, T:0.25
Consensus pattern (30 bp):
TATTTCAAAACAAACAAAGACATAGTAAAT
Found at i:49382187 original size:41 final size:41
Alignment explanation
Indices: 49382130--49382315 Score: 248
Period size: 41 Copynumber: 4.5 Consensus size: 41
49382120 AATATTTTTT
* *
49382130 GCGGCGCTTTTCCAAAAACGCCGTTAAAGCCTCGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * * *
49382171 GCGGCACTTTTCCAAAAATGACGCTAAAGCCCCGATCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCGAGCATTA
* *
49382212 GCGGCGCTTTTCCAAAAACGCCGCTAAATCCCCGAACATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * *
49382253 ACAGCGCTTTTCCAGAAACGCCGCTAAAGCCCCGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCGAGCATTA
49382294 GCGGCG-TTTTCTCAATAAACGC
1 GCGGCGCTTTTC-CAA-AAACGC
49382316 TCCTAATGCT
Statistics
Matches: 124, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
40 5 0.04
41 113 0.91
42 6 0.05
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.21
Consensus pattern (41 bp):
GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCGAGCATTA
Found at i:49388530 original size:135 final size:136
Alignment explanation
Indices: 49388351--49388629 Score: 420
Period size: 135 Copynumber: 2.1 Consensus size: 136
49388341 TTTTTAAAAC
* * * *
49388351 AAAATTTCGATTTTTTTTCAACTATTTCAAAGTAAAAGCTTTAATCTTTAAGAAAAATAGTGTTT
1 AAAATTTTGATTTTTTTTCAACTACTCCAAAATAAAAGCTTTAATCTTTAAGAAAAATAGTGTTT
*
49388416 TTTTTTAAAAGGAGAAAATTTAGATTTTGAAAAATAAAAATATG-TTTTTT-AGTTATTTTAAAG
66 TTTTTT-AAA-GAGAAAATTTAGATTTTGAAAAATAAAAATATGTTTTTTTAAGTCATTTTAAAG
49388479 GAAAGTTT
129 GAAAGTTT
* *
49388487 AAAATTTTGA-TTTTTTTCAACTACTCCAAAATAAAAGTTTTAATCTTTAAGAAAAATATTGTTT
1 AAAATTTTGATTTTTTTTCAACTACTCCAAAATAAAAGCTTTAATCTTTAAGAAAAATAGTGTTT
* *
49388551 TTTTTTAAAGAGAAAGTTTAGATTTTGAAAAATAAAAATATGTTTTTTTAAGTCATTTTAGAGGA
66 TTTTTTAAAGAGAAAATTTAGATTTTGAAAAATAAAAATATGTTTTTTTAAGTCATTTTAAAGGA
*
49388616 ACGTTT
131 AAGTTT
*
49388622 AAATTTTT
1 AAAATTTT
49388630 AAAATAAAGT
Statistics
Matches: 130, Mismatches: 11, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
133 32 0.25
134 9 0.07
135 80 0.62
136 9 0.07
ACGTcount: A:0.40, C:0.05, G:0.11, T:0.44
Consensus pattern (136 bp):
AAAATTTTGATTTTTTTTCAACTACTCCAAAATAAAAGCTTTAATCTTTAAGAAAAATAGTGTTT
TTTTTTAAAGAGAAAATTTAGATTTTGAAAAATAAAAATATGTTTTTTTAAGTCATTTTAAAGGA
AAGTTT
Found at i:49388653 original size:30 final size:31
Alignment explanation
Indices: 49388619--49388681 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
49388609 TAGAGGAACG
49388619 TTTAAAT-TTTTAAAATAAAGTTTTGATTTT
1 TTTAAATATTTTAAAATAAAGTTTTGATTTT
* *
49388649 TTTAACTATTTTGAAATAAAGTTTTGATTTT
1 TTTAAATATTTTAAAATAAAGTTTTGATTTT
49388680 TT
1 TT
49388682 AGAAAATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 6 0.20
31 24 0.80
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.57
Consensus pattern (31 bp):
TTTAAATATTTTAAAATAAAGTTTTGATTTT
Found at i:49389231 original size:25 final size:24
Alignment explanation
Indices: 49389203--49389249 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
49389193 TCACTTGCAT
49389203 TTATACA-TTATATATTTAATGTTAA
1 TTATACACTT-TAT-TTTAATGTTAA
*
49389228 TTATGCACTTTATTTTAATGTT
1 TTATACACTTTATTTTAATGTT
49389250 TTCTATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 9 0.45
25 9 0.45
26 2 0.10
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (24 bp):
TTATACACTTTATTTTAATGTTAA
Found at i:49389420 original size:3 final size:3
Alignment explanation
Indices: 49389406--49389435 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
49389396 GAATGAGGTG
*
49389406 TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
49389436 CATCATCATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:49392689 original size:30 final size:30
Alignment explanation
Indices: 49392655--49392731 Score: 120
Period size: 30 Copynumber: 2.6 Consensus size: 30
49392645 GACACTTTTT
*
49392655 TTTAATTTGGTACTTAAG-TTTTGTTTTAGG
1 TTTAATTTGGTACTTAAGCCTTT-TTTTAGG
*
49392685 TTTAATTTGGTACCTAAGCCTTTTTTTAGG
1 TTTAATTTGGTACTTAAGCCTTTTTTTAGG
49392715 TTTAATTTGGTACTTAA
1 TTTAATTTGGTACTTAA
49392732 ATTTATTAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
30 40 0.93
31 3 0.07
ACGTcount: A:0.22, C:0.08, G:0.17, T:0.53
Consensus pattern (30 bp):
TTTAATTTGGTACTTAAGCCTTTTTTTAGG
Found at i:49396210 original size:42 final size:42
Alignment explanation
Indices: 49396144--49396254 Score: 145
Period size: 42 Copynumber: 2.7 Consensus size: 42
49396134 CAAATGCCCC
* *
49396144 AACAAAAGCTC--AAAAGCTAAACAGAAACTCATAAAAGTTT
1 AACAAAAGCTCGTAAAAGCTGAACAGAAACTCATAAAAGTTA
* * * * *
49396184 AATAGAAGCTCGTAAGAGCTGAACAGAAACTCGTAAGAGTTA
1 AACAAAAGCTCGTAAAAGCTGAACAGAAACTCATAAAAGTTA
49396226 AACAAAAGCTCGTAAAAGCTGAACAGAAA
1 AACAAAAGCTCGTAAAAGCTGAACAGAAA
49396255 GTAAAACATG
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 9 0.15
42 50 0.85
ACGTcount: A:0.50, C:0.16, G:0.17, T:0.16
Consensus pattern (42 bp):
AACAAAAGCTCGTAAAAGCTGAACAGAAACTCATAAAAGTTA
Found at i:49396216 original size:21 final size:21
Alignment explanation
Indices: 49396155--49396254 Score: 94
Period size: 21 Copynumber: 4.8 Consensus size: 21
49396145 ACAAAAGCTC
*
49396155 AAAAGCTAAACAGAAACTCAT
1 AAAAGCTAAACAGAAACTCGT
* * * *
49396176 AAAAGTTTAATAGAAGCTCGT
1 AAAAGCTAAACAGAAACTCGT
* *
49396197 AAGAGCTGAACAGAAACTCGT
1 AAAAGCTAAACAGAAACTCGT
* *
49396218 AAGAGTTAAACA-AAAGCTCGT
1 AAAAGCTAAACAGAAA-CTCGT
*
49396239 AAAAGCTGAACAGAAA
1 AAAAGCTAAACAGAAA
49396255 GTAAAACATG
Statistics
Matches: 62, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 3 0.05
21 56 0.90
22 3 0.05
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.17
Consensus pattern (21 bp):
AAAAGCTAAACAGAAACTCGT
Found at i:49400940 original size:18 final size:18
Alignment explanation
Indices: 49400917--49400953 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
49400907 AAATATGTAG
49400917 ATAAATATATAA-ACTAAT
1 ATAAATA-ATAATACTAAT
49400935 ATAAATAATAATACTAAT
1 ATAAATAATAATACTAAT
49400953 A
1 A
49400954 ATAATGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAAATAATAATACTAAT
Found at i:49402157 original size:15 final size:14
Alignment explanation
Indices: 49402132--49402174 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 14
49402122 TATTTTTTGG
49402132 TTTTCATTATTTATA
1 TTTT-ATTATTTATA
49402147 TTATTATTATTTATA
1 TT-TTATTATTTATA
*
49402162 TTTTTTTATTTAT
1 TTTTATTATTTAT
49402175 TTGATTTGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 10 0.38
15 14 0.54
16 2 0.08
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTATTATTTATA
Found at i:49402680 original size:50 final size:50
Alignment explanation
Indices: 49402611--49403211 Score: 364
Period size: 50 Copynumber: 12.0 Consensus size: 50
49402601 AATCATTTTA
* * *
49402611 ACTGCAATGTCGGGAAAGTAAGATTCACCATTGTGGCTTTAATCTGCTTC
1 ACTGCAATGCCGGGGAAGTAAGATTCACCGTTGTGGCTTTAATCTGCTTC
* * ** * *
49402661 ACTCCATTGCCGGGGAAGTAAGATTCGTC-TTCGTGACTTTAATC--CTTTT
1 ACTGCAATGCCGGGGAAGTAAGATTCACCGTT-GTGGCTTTAATCTGC-TTC
* ** * * *
49402710 AGCTGCAATGTCGGAAAAGCAAGATTCAACGTTGTGGCTTTAATCTAC-TC
1 A-CTGCAATGCCGGGGAAGTAAGATTCACCGTTGTGGCTTTAATCTGCTTC
* * * * * * * * *
49402760 TACTGCACTGGCTGAGAGAGTGAGATTCATCGTTGTGACTTTAATCCT-TTTA
1 -ACTGCAATGCCGGGGA-AGTAAGATTCACCGTTGTGGCTTTAAT-CTGCTTC
* * *
49402812 ACTGCAATGTCGGGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTTC
1 ACTGCAATGCCGGGGAAGTAAGATTCACCGTTGTGGCTTTAATCTGCTTC
* * * * ** *
49402862 ACTGCATTGCCGGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTA
1 ACTGCAATGCCGGGGAAGTAAGATTCACCGTTGTGGCTTTAATCTGCTTC
* * * *
49402912 ACTGCAATGTCAGGGAGGCAAGATTCACCGTTGTGGCTTTAATCTG-TTCC
1 ACTGCAATGCCGGGGAAGTAAGATTCACCGTTGTGGCTTTAATCTGCTT-C
** ** * * * * *
49402962 ACTGCACCGCC-TTGAAGGTAAGATTCACTGCTGTAGCTTTAATCT-TTTAA
1 ACTGCAATGCCGGGGAA-GTAAGATTCACCGTTGTGGCTTTAATCTGCTT-C
* * * *
49403012 ACTGCAATGTCAGGG-AGACAAGATTCACCGTTGTAGCTTTAATCTG-TTCC
1 ACTGCAATGCCGGGGAAG-TAAGATTCACCGTTGTGGCTTTAATCTGCTT-C
** * ** * * * *
49403062 ACTGCACCGCC-TGGAAGGTAAGATTTGCTGTTGTAGCTTTAATCT-TTTAA
1 ACTGCAATGCCGGGGAA-GTAAGATTCACCGTTGTGGCTTTAATCTGCTT-C
* * * * *
49403112 ACTGTAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTCC
1 ACTGCAATGCCGGGGAAGTAAGATTCACCGTTGTGGCTTTAATCTGCTTC
* * * *
49403162 ACTGC-ATCGCCAGGGAAGTAGGATTCACTGCTGTGGCTTTAATCTGCTTC
1 ACTGCAAT-GCCGGGGAAGTAAGATTCACCGTTGTGGCTTTAATCTGCTTC
49403212 CTTACACTTG
Statistics
Matches: 415, Mismatches: 113, Indels: 46
0.72 0.20 0.08
Matches are distributed among these distances:
48 1 0.00
49 16 0.04
50 350 0.84
51 44 0.11
52 4 0.01
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (50 bp):
ACTGCAATGCCGGGGAAGTAAGATTCACCGTTGTGGCTTTAATCTGCTTC
Found at i:49402933 original size:100 final size:98
Alignment explanation
Indices: 49402598--49403206 Score: 631
Period size: 100 Copynumber: 6.1 Consensus size: 98
49402588 AGAGAGTGAT
* * *
49402598 TTTAATCATTTTAACTGCAATGTCGGGAAAGTAAGATTCACCATTGTGGCTTTAATCTGCTTCAC
1 TTTAATCTTTTTAACTGCAATGTCGGG-AAGCAAGATTCACCGTTGTGGCTTTAATCTGCTTCAC
* ** *
49402663 TCCATTGCCGGGGAAGTAAGATTCGTCT-TCGT-GAC
65 TGCACCGCC-GGGAAGTAAGATTCG-CTGTTGTAG-C
* * * * *
49402698 TTTAATCCTTTTAGCTGCAATGTCGGAAAAGCAAGATTCAACGTTGTGGCTTTAATCTAC-TCTA
1 TTTAATCTTTTTAACTGCAATGTCGG-GAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTTC-A
* * * * *
49402762 CTGCACTGGCTGAGAGAGTGAGATTC-ATCGTTGT-GAC
64 CTGCAC-CGCCGGGA-AGTAAGATTCGCT-GTTGTAG-C
*
49402799 TTTAATCCTTTTAACTGCAATGTCGGGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTTCAC
1 TTTAATCTTTTTAACTGCAATGTCGGG-AAGCAAGATTCACCGTTGTGGCTTTAATCTGCTTCAC
**
49402864 TGCATTGCCGGGGAAGTAAGATTCGCTGTTGTAGC
65 TGCACCGCC-GGGAAGTAAGATTCGCTGTTGTAGC
*
49402899 TTTAATCTTTTTAACTGCAATGTCAGGGAGGCAAGATTCACCGTTGTGGCTTTAATCTG-TTCCA
1 TTTAATCTTTTTAACTGCAATGTC-GGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTT-CA
** * *
49402963 CTGCACCGCCTTGAAGGTAAGATTCACTGCTGTAGC
64 CTGCACCGCCGGGAA-GTAAGATTCGCTGTTGTAGC
* *
49402999 TTTAATCTTTTAAACTGCAATGTCAGGG-AGACAAGATTCACCGTTGTAGCTTTAATCTG-TTCC
1 TTTAATCTTTTTAACTGCAATGTC-GGGAAG-CAAGATTCACCGTTGTGGCTTTAATCTGCTT-C
* *
49403062 ACTGCACCGCCTGGAAGGTAAGATTTGCTGTTGTAGC
63 ACTGCACCGCCGGGAA-GTAAGATTCGCTGTTGTAGC
* * * *
49403099 TTTAATCTTTTAAACTGTAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTCCAC
1 TTTAATCTTTTTAACTGCAATGTC-GGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTTCAC
* * * * *
49403164 TGCATCGCCAGGGAAGTAGGATTCACTGCTGTGGC
65 TGCACCGCC-GGGAAGTAAGATTCGCTGTTGTAGC
49403199 TTTAATCT
1 TTTAATCT
49403207 GCTTCCTTAC
Statistics
Matches: 439, Mismatches: 52, Indels: 36
0.83 0.10 0.07
Matches are distributed among these distances:
99 9 0.02
100 335 0.76
101 93 0.21
102 2 0.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.33
Consensus pattern (98 bp):
TTTAATCTTTTTAACTGCAATGTCGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTTCACT
GCACCGCCGGGAAGTAAGATTCGCTGTTGTAGC
Found at i:49403094 original size:200 final size:196
Alignment explanation
Indices: 49402598--49403206 Score: 737
Period size: 200 Copynumber: 3.0 Consensus size: 196
49402588 AGAGAGTGAT
* *
49402598 TTTAATCATTTTAACTGCAATGTCGGGAAAGTAAGATTCACCATTGTGGCTTTAATCTGCTTCAC
1 TTTAATC-TTTTAACTGCAATGTCGGGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTTCAC
* * * * *
49402663 TCCATTGCCGGGGAAGTAAGATTCGTCT-TCGT-GACTTTAATCCTTTTAGCTGCAATGTCGGAA
65 TGCATTGCCGGGGAAGTAAGATTCG-CTGTTGTAG-CTTTAATCTTTTTAACTGCAATGTCGG-G
* * * * * *
49402726 AAGCAAGATTCAACGTTGTGGCTTTAATCTACTCTACTGCACTGGCTGAGAGAGTGAGATTCA-T
127 AAGCAAGATTCACCGTTGTGGCTTTAATCTGCTCCACTGCACCGCCTGA-AG-GTAAGATTCACT
*
49402790 CGTTGTGAC
190 -GCTGTG-C
49402799 TTTAATCCTTTTAACTGCAATGTCGGGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTTCAC
1 TTTAAT-CTTTTAACTGCAATGTCGGGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTTCAC
*
49402864 TGCATTGCCGGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCAGGGAG
65 TGCATTGCCGGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTC-GGGAA
*
49402929 GCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCTTGAAGGTAAGATTCACTGCT
129 GCAAGATTCACCGTTGTGGCTTTAATCTGCTCCACTGCACCGCC-TGAAGGTAAGATTCACTGCT
49402994 GTAGC
193 GT-GC
* *
49402999 TTTAATCTTTTAAACTGCAATGTCAGGGAGA-CAAGATTCACCGTTGTAGCTTTAATCTG-TTCC
1 TTTAATCTTTT-AACTGCAATGTC-GGGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTT-C
** * * * *
49403062 ACTGCACCGCC-TGGAAGGTAAGATTTGCTGTTGTAGCTTTAATCTTTTAAACTGTAATGTCGGG
63 ACTGCATTGCCGGGGAA-GTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTC-GG
* * * *
49403126 GAAGCAAGATTCACCGATGTGGCTTTAATCTGCTCCACTGCATCGCCAGGGAA-GTAGGATTCAC
126 GAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTCCACTGCACCGCC--TGAAGGTAAGATTCAC
49403190 TGCTGTGGC
189 TGCTGT-GC
49403199 TTTAATCT
1 TTTAATCT
49403207 GCTTCCTTAC
Statistics
Matches: 363, Mismatches: 33, Indels: 25
0.86 0.08 0.06
Matches are distributed among these distances:
199 11 0.03
200 183 0.50
201 162 0.45
202 7 0.02
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.33
Consensus pattern (196 bp):
TTTAATCTTTTAACTGCAATGTCGGGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTTCACT
GCATTGCCGGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGAAGC
AAGATTCACCGTTGTGGCTTTAATCTGCTCCACTGCACCGCCTGAAGGTAAGATTCACTGCTGTG
C
Found at i:49404525 original size:7 final size:7
Alignment explanation
Indices: 49404510--49404561 Score: 70
Period size: 7 Copynumber: 7.4 Consensus size: 7
49404500 AGCCTCTCCA
*
49404510 TTTCCTT
1 TTTCATT
49404517 TTTCATT
1 TTTCATT
*
49404524 TTTGATT
1 TTTCATT
49404531 TTTCA-T
1 TTTCATT
49404537 TTTCATGT
1 TTTCAT-T
49404545 TTTCATT
1 TTTCATT
49404552 TTTCATT
1 TTTCATT
49404559 TTT
1 TTT
49404562 TTTGACTCAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
6 6 0.15
7 27 0.68
8 7 0.17
ACGTcount: A:0.12, C:0.13, G:0.04, T:0.71
Consensus pattern (7 bp):
TTTCATT
Found at i:49410309 original size:18 final size:18
Alignment explanation
Indices: 49410286--49410322 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
49410276 AAATATGTAG
49410286 ATAAATATATAA-ACTAAT
1 ATAAATA-ATAATACTAAT
49410304 ATAAATAATAATACTAAT
1 ATAAATAATAATACTAAT
49410322 A
1 A
49410323 ATAATGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAAATAATAATACTAAT
Found at i:49411522 original size:19 final size:19
Alignment explanation
Indices: 49411498--49411542 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
49411488 TAACTGGACA
49411498 TTTTTGGACATTTAATTAT
1 TTTTTGGACATTTAATTAT
49411517 TTTTTGGACATTTAATTAT
1 TTTTTGGACATTTAATTAT
49411536 TTTTTGG
1 TTTTTGG
49411543 TTTTCATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.22, C:0.04, G:0.13, T:0.60
Consensus pattern (19 bp):
TTTTTGGACATTTAATTAT
Found at i:49411569 original size:17 final size:15
Alignment explanation
Indices: 49411549--49411601 Score: 65
Period size: 14 Copynumber: 3.5 Consensus size: 15
49411539 TTGGTTTTCA
49411549 TTATTTATATTTATATT
1 TTATTTATATTT-TA-T
49411566 TTATTT-TATTTTAT
1 TTATTTATATTTTAT
*
49411580 TT-TTTATATTTTGT
1 TTATTTATATTTTAT
49411594 TTATTTAT
1 TTATTTAT
49411602 TTGATTTGGG
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 3 0.09
14 12 0.36
15 7 0.21
16 5 0.15
17 6 0.18
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (15 bp):
TTATTTATATTTTAT
Found at i:49411572 original size:5 final size:5
Alignment explanation
Indices: 49411549--49411608 Score: 54
Period size: 5 Copynumber: 12.2 Consensus size: 5
49411539 TTGGTTTTCA
* *
49411549 TTATT TATATT TATATT TTATT TTATT TTATT TT-TT ATATT TT-GT TTA-T
1 TTATT T-TATT T-TATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT
*
49411598 TTATT TGATT T
1 TTATT TTATT T
49411609 GGGCCGGGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
4 10 0.21
5 26 0.55
6 11 0.23
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (5 bp):
TTATT
Found at i:49411578 original size:23 final size:23
Alignment explanation
Indices: 49411552--49411599 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
49411542 GTTTTCATTA
*
49411552 TTTA-TATTTATATTTTATTTTAT
1 TTTATTATTTATATTTT-GTTTAT
*
49411575 TTTATTTTTTATATTTTGTTTAT
1 TTTATTATTTATATTTTGTTTAT
49411598 TT
1 TT
49411600 ATTTGATTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (23 bp):
TTTATTATTTATATTTTGTTTAT
Found at i:49411603 original size:22 final size:23
Alignment explanation
Indices: 49411549--49411603 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
49411539 TTGGTTTTCA
* *
49411549 TTATTTA-TATTTATATTTTATT
1 TTATTTATTTTTTATATTTTAGT
49411571 TTATTTTATTTTTTATATTTT-GT
1 TTA-TTTATTTTTTATATTTTAGT
49411594 TTATTTATTT
1 TTATTTATTT
49411604 GATTTGGGCC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 10 0.34
23 8 0.28
24 11 0.38
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (23 bp):
TTATTTATTTTTTATATTTTAGT
Done.